miRNA display CGI


Results 1 - 20 of 24 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12488 5' -64.1 NC_003324.1 + 10244 0.65 0.357998
Target:  5'- aCgGgCCGAgaggUCGGGcauugucucGCGGauuuguuCCGGCGUCg -3'
miRNA:   3'- -GgCgGGCUa---AGCCC---------CGCC-------GGCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 40257 0.65 0.357998
Target:  5'- gCCGCCuugcgugCGGUcCGGGGCuuGGCgGGUGcCu -3'
miRNA:   3'- -GGCGG-------GCUAaGCCCCG--CCGgCCGCaG- -5'
12488 5' -64.1 NC_003324.1 + 4876 0.66 0.343181
Target:  5'- -aGCCCuGUUCauGGGCcgucaGGCUGGCGUUa -3'
miRNA:   3'- ggCGGGcUAAGc-CCCG-----CCGGCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 22222 0.66 0.335562
Target:  5'- gCCGCCgCGcaccUUCGGGaGCGGCaa-CGUCu -3'
miRNA:   3'- -GGCGG-GCu---AAGCCC-CGCCGgccGCAG- -5'
12488 5' -64.1 NC_003324.1 + 37151 0.66 0.334807
Target:  5'- gCCGCUCauucgcgGAUUCGGccaaGGuuGGCGUCg -3'
miRNA:   3'- -GGCGGG-------CUAAGCCccg-CCggCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 57380 0.66 0.328068
Target:  5'- cUCGgCgGAggCGaGGGCGGCacgacCGGCGUUg -3'
miRNA:   3'- -GGCgGgCUaaGC-CCCGCCG-----GCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 7777 0.66 0.313452
Target:  5'- uUCGCgCCGGUguuucCGGGGuCGGC-GGUGUg -3'
miRNA:   3'- -GGCG-GGCUAa----GCCCC-GCCGgCCGCAg -5'
12488 5' -64.1 NC_003324.1 + 29557 0.66 0.313452
Target:  5'- gCGCCCGAcgCGcccgcagccaGGCGGCC-GUGUCa -3'
miRNA:   3'- gGCGGGCUaaGCc---------CCGCCGGcCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 52207 0.67 0.306331
Target:  5'- aCCGCCCGAUacuaccauggCGGGuuCGGCgGGCu-- -3'
miRNA:   3'- -GGCGGGCUAa---------GCCCc-GCCGgCCGcag -5'
12488 5' -64.1 NC_003324.1 + 35490 0.67 0.290426
Target:  5'- cCCGCaCCGAgggCGaggaaaccaugcgcGGGCGGCCGaGCa-- -3'
miRNA:   3'- -GGCG-GGCUaa-GC--------------CCCGCCGGC-CGcag -5'
12488 5' -64.1 NC_003324.1 + 2506 0.67 0.285715
Target:  5'- gCCGCCgGcgUCGGcGGCuucaucaucGGCguuggCGGUGUCa -3'
miRNA:   3'- -GGCGGgCuaAGCC-CCG---------CCG-----GCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 30923 0.67 0.285715
Target:  5'- aCGCCgGAuUUCaGGaGCGuCCGGUGUCg -3'
miRNA:   3'- gGCGGgCU-AAGcCC-CGCcGGCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 30175 0.68 0.266209
Target:  5'- aUCGCugaCCGAaggcgUCGaGGaagccgcaGCGGCCGGUGUCg -3'
miRNA:   3'- -GGCG---GGCUa----AGC-CC--------CGCCGGCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 11131 0.68 0.25995
Target:  5'- -gGCCCGAccuugguccgcUUCGccggucuGGCGGCCGGC-UCg -3'
miRNA:   3'- ggCGGGCU-----------AAGCc------CCGCCGGCCGcAG- -5'
12488 5' -64.1 NC_003324.1 + 31021 0.68 0.25995
Target:  5'- aUCGCuuGGUagcgacCGGcGCGGUCGGCGUUc -3'
miRNA:   3'- -GGCGggCUAa-----GCCcCGCCGGCCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 4629 0.68 0.241895
Target:  5'- gCGCUCGAUcaCGGcGCGGCUcaucuugucgguGGCGUCg -3'
miRNA:   3'- gGCGGGCUAa-GCCcCGCCGG------------CCGCAG- -5'
12488 5' -64.1 NC_003324.1 + 16900 0.68 0.236113
Target:  5'- gUGCgCCGAUUUgcaaGGuGGCGGCUGccaGCGUCa -3'
miRNA:   3'- gGCG-GGCUAAG----CC-CCGCCGGC---CGCAG- -5'
12488 5' -64.1 NC_003324.1 + 2363 0.68 0.236113
Target:  5'- cCCGCCCGca--GGGGCGGgUcGCGgUCg -3'
miRNA:   3'- -GGCGGGCuaagCCCCGCCgGcCGC-AG- -5'
12488 5' -64.1 NC_003324.1 + 25335 0.68 0.230447
Target:  5'- aUCGCCCG--UCGccuuggcuuuaaGGGCGGCCaGGUGcUCg -3'
miRNA:   3'- -GGCGGGCuaAGC------------CCCGCCGG-CCGC-AG- -5'
12488 5' -64.1 NC_003324.1 + 23774 0.69 0.224896
Target:  5'- -gGUCCGAUUCGGcGGCGcGuUCGGCcUCg -3'
miRNA:   3'- ggCGGGCUAAGCC-CCGC-C-GGCCGcAG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.